LOCUS       NM_001395133            2299 bp    mRNA    linear   ROD 30-MAR-2024
DEFINITION  Rattus norvegicus iroquois homeobox 3 (Irx3), mRNA.
ACCESSION   NM_001395133 XM_006255191
VERSION     NM_001395133.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 2299)
  AUTHORS   Nowacka-Woszuk,J., Pruszynska-Oszmalek,E., Szydlowski,M. and
            Szczerbal,I.
  TITLE     Nutrition modulates Fto and Irx3 gene transcript levels, but does
            not alter their DNA methylation profiles in rat white adipose
            tissues
  JOURNAL   Gene 610, 44-48 (2017)
   PUBMED   28179100
  REMARK    GeneRIF: Study revealed that diet was an important factor
            modulating transcription of Fto and Irx3, but its effect is
            time-dependent. In contrast, the DNA methylation profiles of Fto
            and Irx3 were not altered by nutrition, which may indicate that the
            feeding type, when applied postnatally, did not affect DNA
            methylation of these genes.
REFERENCE   2  (bases 1 to 2299)
  AUTHORS   Smemo,S., Tena,J.J., Kim,K.H., Gamazon,E.R., Sakabe,N.J.,
            Gomez-Marin,C., Aneas,I., Credidio,F.L., Sobreira,D.R.,
            Wasserman,N.F., Lee,J.H., Puviindran,V., Tam,D., Shen,M., Son,J.E.,
            Vakili,N.A., Sung,H.K., Naranjo,S., Acemel,R.D., Manzanares,M.,
            Nagy,A., Cox,N.J., Hui,C.C., Gomez-Skarmeta,J.L. and Nobrega,M.A.
  TITLE     Obesity-associated variants within FTO form long-range functional
            connections with IRX3
  JOURNAL   Nature 507 (7492), 371-375 (2014)
   PUBMED   24646999
REFERENCE   3  (bases 1 to 2299)
  AUTHORS   Song,M.R., Sun,Y., Bryson,A., Gill,G.N., Evans,S.M. and Pfaff,S.L.
  TITLE     Islet-to-LMO stoichiometries control the function of transcription
            complexes that specify motor neuron and V2a interneuron identity
  JOURNAL   Development 136 (17), 2923-2932 (2009)
   PUBMED   19666821
REFERENCE   4  (bases 1 to 2299)
  AUTHORS   He,W., Jia,Y. and Takimoto,K.
  TITLE     Interaction between transcription factors Iroquois proteins 4 and 5
            controls cardiac potassium channel Kv4.2 gene transcription
  JOURNAL   Cardiovasc Res 81 (1), 64-71 (2009)
   PUBMED   18815185
REFERENCE   5  (bases 1 to 2299)
  AUTHORS   Reggiani,L., Raciti,D., Airik,R., Kispert,A. and Brandli,A.W.
  TITLE     The prepattern transcription factor Irx3 directs nephron segment
            identity
  JOURNAL   Genes Dev 21 (18), 2358-2370 (2007)
   PUBMED   17875669
REFERENCE   6  (bases 1 to 2299)
  AUTHORS   Phinney,D.G., Hill,K., Michelson,C., DuTreil,M., Hughes,C.,
            Humphries,S., Wilkinson,R., Baddoo,M. and Bayly,E.
  TITLE     Biological activities encoded by the murine mesenchymal stem cell
            transcriptome provide a basis for their developmental potential and
            broad therapeutic efficacy
  JOURNAL   Stem Cells 24 (1), 186-198 (2006)
   PUBMED   16100003
REFERENCE   7  (bases 1 to 2299)
  AUTHORS   Mahlapuu,M., Ormestad,M., Enerback,S. and Carlsson,P.
  TITLE     The forkhead transcription factor Foxf1 is required for
            differentiation of extra-embryonic and lateral plate mesoderm
  JOURNAL   Development 128 (2), 155-166 (2001)
   PUBMED   11124112
REFERENCE   8  (bases 1 to 2299)
  AUTHORS   Briscoe,J., Pierani,A., Jessell,T.M. and Ericson,J.
  TITLE     A homeodomain protein code specifies progenitor cell identity and
            neuronal fate in the ventral neural tube
  JOURNAL   Cell 101 (4), 435-445 (2000)
   PUBMED   10830170
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000019.1.
            
            On Jun 4, 2021 this sequence version replaced XM_006255191.3.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR23984936.459537.1,
                                           SRR26643287.35668.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760386, SAMEA5760433
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-681               JAXUCZ010000019.1  31385118-31385798
            682-1807            JAXUCZ010000019.1  31385965-31387090
            1808-1874           JAXUCZ010000019.1  31387280-31387346
            1875-2299           JAXUCZ010000019.1  31387817-31388241
FEATURES             Location/Qualifiers
     source          1..2299
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="19"
                     /map="19p11"
     gene            1..2299
                     /gene="Irx3"
                     /note="iroquois homeobox 3"
                     /db_xref="GeneID:307721"
                     /db_xref="RGD:1307424"
     exon            1..681
                     /gene="Irx3"
                     /inference="alignment:Splign:2.1.0"
     CDS             406..1929
                     /gene="Irx3"
                     /note="Iroquois related homeobox 3"
                     /codon_start=1
                     /product="iroquois-class homeodomain protein IRX-3"
                     /protein_id="NP_001382062.1"
                     /db_xref="GeneID:307721"
                     /db_xref="RGD:1307424"
                     /translation="MSFPQLGYQYIRPLYPPERPPAAGGGGGGSSAGGRSGPGAGASE
                     LAASGSLSNVLSSVYGAPYAAAAAAAAAAQGYGAFLPYATELPIFPQLGAQYELKDSP
                     GVQHPATAAAFPHPHPAFYPYGQYQFGDPSRPKNATRESTSTLKAWLNEHRKNPYPTK
                     GEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWAPRSRTDEEGNAYGSEREEEDE
                     EEDEEEGKRELEMEEEELAGEEEDTGGEGLADDDEDEEIDLENLDSAAAGSELTLAGT
                     AHRNGDFGLGPISDCKNSDSDDSSESLEERPLSVLSLAPAPPPVARAPASPPSPPSGL
                     DPCAPAPAPSSTLQKPKIWSLAETATSPDNPRRSPPGAGGSPPGAAVAPPTLQLSPAA
                     AAAAAAAHRLVSAPLGKFPAWTNRPFPGPPAGPRPHPLSMLGSAPQHLLGLPGAAGHP
                     AAAAAAYARPAEPESGTDRCSALEVEKKLLKTAFQPVPRRPQNHLDAALVLSALSSS"
     exon            682..1807
                     /gene="Irx3"
                     /inference="alignment:Splign:2.1.0"
     exon            1808..1874
                     /gene="Irx3"
                     /inference="alignment:Splign:2.1.0"
     exon            1875..2299
                     /gene="Irx3"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gacaggacag gaggagagtg taaactagag gagggcgaag gaagcgaggc gcgacacagc
       61 tccgggagag gagggcagaa ctgagcgcct agcgcagagc ggctcgcccg gcctagagga
      121 gggagtgctg cgcagagagg aggggcttga ggccccgtag aaatgtcaat cagagccggg
      181 agcccaggga atctcggcca atctgttcgg acctgacctg actcctcgct gccgccgccg
      241 ccaccgtcgc ccgccgccga gcagatcaat aggcgaacgc ggagcgcgac gcagcgcggc
      301 ccgggctcgg cccagccccc gatgctctcc ggagccggcg tccggcgctg agcacggcgg
      361 cccggggggc ccggccccca gtccgtaggt gcgccgcggg ccaccatgtc cttcccccag
      421 ctcggatacc agtacatccg cccgctctac ccacccgagc gcccgccagc cgcgggcggc
      481 ggcggaggtg gcagtagcgc tgggggccgg agcggtccgg gtgccggagc ctccgagttg
      541 gccgcctcgg ggtccctatc caatgtgctt tcgtccgtgt acggggcacc ctacgccgcg
      601 gccgcagcag ccgccgccgc cgcccagggg tacggcgcct tcctgcccta cgccacggag
      661 ctgcccatct tcccacagct gggcgctcag tatgagctga aggacagccc tggggtccag
      721 catccggcca cggccgccgc gttcccgcac ccgcaccccg ccttctaccc ctacggccag
      781 taccagttcg gggacccgtc ccgtcccaag aacgccaccc gggaaagcac aagcacgctt
      841 aaggcctggc tcaatgaaca ccgcaagaac ccgtacccca ccaagggcga gaagatcatg
      901 ttggccatca tcaccaaaat gaccctcacc caggtgtcca cctggttcgc caacgcgcgc
      961 cggcgcctca agaaggaaaa caagatgacg tgggctcccc gtagtcgcac ggacgaggag
     1021 ggcaatgctt atgggagcga gcgggaggag gaggacgaag aggaagacga ggaagagggc
     1081 aaacgcgagc tggagatgga ggaggaggag ctcgcaggag aggaggagga cacggggggc
     1141 gagggcctgg ccgacgacga cgaggatgag gagatcgatt tggaaaactt agacagcgcg
     1201 gcagccgggt cggaactaac cctggctggg acggcgcata ggaacggaga cttcggccta
     1261 ggacccattt cagactgcaa aaatagcgac tcggacgaca gctccgaaag cttggaggag
     1321 cgaccactgt ccgtcctgag cttggctccc gcgccaccgc ccgtggccag ggctcctgcg
     1381 tctccacctt ctccaccctc cggcctggac ccctgcgctc cggcaccggc gccctcctcc
     1441 accctccaga agcccaagat ctggtcactg gccgagacgg ccactagccc ggacaaccca
     1501 cgtcgatcgc ctcccggagc cggaggttct cctcccgggg cagccgttgc gcccccgacg
     1561 ctgcagctct cgcccgcggc cgccgcagcg gctgctgcag cacacagact ggtgtcggcg
     1621 ccgcttggca aattccccgc ttggaccaac aggcctttcc caggcccgcc ggccggtccg
     1681 cggccgcacc cgctgtccat gctaggctcg gccccacagc acctgctggg acttcccgga
     1741 gccgcaggcc accccgctgc ggccgccgcc gcctatgctc ggcctgcgga gccagagagt
     1801 ggaacagatc gctgtagtgc cttggaagtg gagaaaaagt tacttaagac agctttccag
     1861 ccggtgccaa ggcggcccca gaaccacctg gatgctgctc tggtcttatc agctctctct
     1921 tcgtcttaac ttttcaacaa tttttaaatc gttgtactaa ttgtaaaaac aaattcgctc
     1981 tgtatagtgt cgagttgcaa gcatgtctgt gtatgattac cttaaaagaa acactaaaca
     2041 acaacagaaa aggacgaaag gaagaaataa agccagtccc ccctcggccc tcccccaagt
     2101 cacttccata tcaccccaca ttagactgtg aggttcgttt gttctgttga tttcggaggg
     2161 aagtggggtt acagagagaa taagcccgtc tgactctttt tgtatatacc ggaaaatgta
     2221 catacgtgtg aaccaaattg tacaagaaag tatctatttt ttggctaaat aaatgagttg
     2281 ttgccacttt tgactataa
//
